Java error running the xiSEARCH #106

tomvaiuw · 2024-06-13T13:19:15Z

tomvaiuw
Jun 13, 2024

Hi, I have installed the xiSearch but when I try to run it I keep getting Java error (error below). I updated Java to version 8 update 411, the latest version, but still get the same error.
Based on the installation instructions I am doing everything correct.
I was wondering if you could advice me on how to fix this issue.
I am running it on Windows 11, with 64 GB RAM.

Thanks for any advice,
Tomas

Error on start up of the xiSearch:
!!reading config!!!
from : .rappsilber.data.DefaultConfig.conf
java.lang.NullPointerException
Jun 13, 2024 6:03:34 AM rappsilber.gui.SimpleXiGui
INFO: Logger Connected
Jun 13, 2024 6:03:35 AM rappsilber.gui.components.CallBackSettings$2 run
INFO: Checking for new Version with: https://rappsilberlab.org/xiversion/check.php?user=5b6f7412-9327-4f29-9a48-4e113f59dac8
Jun 13, 2024 6:03:35 AM rappsilber.gui.components.CallBackSettings$2 run
INFO: Response:1.8.3

Jun 13, 2024 6:03:35 AM rappsilber.gui.components.CallBackSettings$2 run
INFO: latest online version: 1.8.3
Exception in thread "VersionCheck" java.lang.NullPointerException
at org.rappsilber.utils.Version.toString(Version.java:124)
at java.lang.String.valueOf(Unknown Source)
at java.lang.StringBuilder.append(Unknown Source)
at rappsilber.gui.components.CallBackSettings$2.run(CallBackSettings.java:162)
at java.lang.Thread.run(Unknown Source)

FURTHER ERROR WHEN I TRY TO SETUP AND START THE SEARCH:
Exception in thread "AWT-EventQueue-0" java.lang.NullPointerException
at java.lang.String.contentEquals(Unknown Source)
at rappsilber.config.LocalProperties.setProperty(LocalProperties.java:78)
at rappsilber.config.LocalProperties.setFolder(LocalProperties.java:72)
at rappsilber.gui.components.FileBrowser.setFile(FileBrowser.java:93)
at rappsilber.gui.components.FileBrowser.setFile(FileBrowser.java:80)
at rappsilber.gui.components.FileBrowser.txtFilePathFocusLost(FileBrowser.java:213)
at rappsilber.gui.components.FileBrowser.access$300(FileBrowser.java:32)
at rappsilber.gui.components.FileBrowser$4.focusLost(FileBrowser.java:157)
at java.awt.AWTEventMulticaster.focusLost(Unknown Source)
at java.awt.Component.processFocusEvent(Unknown Source)
at java.awt.Component.processEvent(Unknown Source)
at java.awt.Container.processEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.KeyboardFocusManager.redispatchEvent(Unknown Source)
at java.awt.DefaultKeyboardFocusManager.typeAheadAssertions(Unknown Source)
at java.awt.DefaultKeyboardFocusManager.dispatchEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$500(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source)
Exception in thread "AWT-EventQueue-0" java.lang.NoSuchMethodError: java.nio.MappedByteBuffer.alignedSlice(I)Ljava/nio/ByteBuffer;
at rappsilber.ui.MemMapStatusControl.(MemMapStatusControl.java:53)
at rappsilber.gui.SimpleXiGui.innerStartXiSEARCH(SimpleXiGui.java:954)
at rappsilber.gui.SimpleXiGui.startXiProcess(SimpleXiGui.java:888)
at rappsilber.gui.SimpleXiGui.btnStartSearch2btnStartSearchActionPerformed(SimpleXiGui.java:2281)
at rappsilber.gui.SimpleXiGui.access$6700(SimpleXiGui.java:104)
at rappsilber.gui.SimpleXiGui$44.actionPerformed(SimpleXiGui.java:1962)
at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(Unknown Source)
at java.awt.AWTEventMulticaster.mouseReleased(Unknown Source)
at java.awt.Component.processMouseEvent(Unknown Source)
at javax.swing.JComponent.processMouseEvent(Unknown Source)
at java.awt.Component.processEvent(Unknown Source)
at java.awt.Container.processEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Window.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$500(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source)

tomvaiuw · 2024-07-03T18:24:13Z

tomvaiuw
Jul 3, 2024
Author

Hi, I wonder if you would have any suggestion for the reason for this error. I have now tried to run XiSearch on another computer with Windows 11 and it ran fine. I cannot seem to find a rationale for this error in the configuration of the two computers. Both running Windows 11 and both have latest Java 8 (installed on the same day).

Thanks,
Tomas

0 replies

lutzfischer · 2024-07-11T12:59:45Z

lutzfischer
Jul 11, 2024
Maintainer

can you try with the new version, Just released the version 1.8.4.

1 reply

tomvaiuw Jul 12, 2024
Author

I just tried and I am getting the same error :
INFO: latest online version: 1.8.4
Exception in thread "AWT-EventQueue-0" java.lang.NoSuchMethodError: java.nio.MappedByteBuffer.alignedSlice(I)Ljava/nio/ByteBuffer;
at rappsilber.ui.MemMapStatusControl.(MemMapStatusControl.java:54)
at rappsilber.gui.SimpleXiGui.innerStartXiSEARCH(SimpleXiGui.java:954)
at rappsilber.gui.SimpleXiGui.startXiProcess(SimpleXiGui.java:888)
at rappsilber.gui.SimpleXiGui.btnStartSearch2btnStartSearchActionPerformed(SimpleXiGui.java:2281)
at rappsilber.gui.SimpleXiGui.access$6700(SimpleXiGui.java:104)
at rappsilber.gui.SimpleXiGui$44.actionPerformed(SimpleXiGui.java:1962)
at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(Unknown Source)
at java.awt.AWTEventMulticaster.mouseReleased(Unknown Source)
at java.awt.Component.processMouseEvent(Unknown Source)
at javax.swing.JComponent.processMouseEvent(Unknown Source)
at java.awt.Component.processEvent(Unknown Source)
at java.awt.Container.processEvent(Unknown Source)
at java.awt.Component.dispatchEventImpl(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
at java.awt.Container.dispatchEventImpl(Unknown Source)
at java.awt.Window.dispatchEventImpl(Unknown Source)
at java.awt.Component.dispatchEvent(Unknown Source)
at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
at java.awt.EventQueue.access$500(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.awt.EventQueue$3.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.awt.EventQueue$4.run(Unknown Source)
at java.security.AccessController.doPrivileged(Native Method)
at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
at java.awt.EventQueue.dispatchEvent(Unknown Source)
at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
at java.awt.EventDispatchThread.run(Unknown Source)

michabirklbauer · 2025-11-05T20:48:12Z

michabirklbauer
Nov 5, 2025

Any updates on this? I still get this error in v1.8.9 unfortunately.

!!!reading config!!!
from : .rappsilber.data.DefaultConfig.conf
java.lang.NullPointerException
Nov 05, 2025 9:35:11 PM rappsilber.gui.SimpleXiGui <init>
INFORMATION: Logger Connected
Nov 05, 2025 9:35:12 PM rappsilber.gui.components.CallBackSettings$2 run
INFORMATION: Checking for new Version with: https://rappsilberlab.org/xiversion/check.php?user=d0b1a1c7-7991-4081-a8f5-73071fdba2d7
Nov 05, 2025 9:35:12 PM rappsilber.gui.components.CallBackSettings$2 run
INFORMATION: Response:1.8.9

Nov 05, 2025 9:35:12 PM rappsilber.gui.components.CallBackSettings$2 run
INFORMATION: latest online version: 1.8.9
Exception in thread "AWT-EventQueue-0" java.lang.NoSuchMethodError: java.nio.MappedByteBuffer.position(I)Ljava/nio/MappedByteBuffer;
        at rappsilber.ui.MemMapStatusControl.<init>(MemMapStatusControl.java:55)
        at rappsilber.gui.SimpleXiGui.innerStartXiSEARCH(SimpleXiGui.java:978)
        at rappsilber.gui.SimpleXiGui.startXiProcess(SimpleXiGui.java:902)
        at rappsilber.gui.SimpleXiGui.btnStartSearch2btnStartSearchActionPerformed(SimpleXiGui.java:2334)
        at rappsilber.gui.SimpleXiGui.access$6700(SimpleXiGui.java:108)
        at rappsilber.gui.SimpleXiGui$44.actionPerformed(SimpleXiGui.java:1988)
        at javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
        at javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
        at javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
        at javax.swing.DefaultButtonModel.setPressed(Unknown Source)
        at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(Unknown Source)
        at java.awt.AWTEventMulticaster.mouseReleased(Unknown Source)
        at java.awt.Component.processMouseEvent(Unknown Source)
        at javax.swing.JComponent.processMouseEvent(Unknown Source)
        at java.awt.Component.processEvent(Unknown Source)
        at java.awt.Container.processEvent(Unknown Source)
        at java.awt.Component.dispatchEventImpl(Unknown Source)
        at java.awt.Container.dispatchEventImpl(Unknown Source)
        at java.awt.Component.dispatchEvent(Unknown Source)
        at java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
        at java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
        at java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
        at java.awt.Container.dispatchEventImpl(Unknown Source)
        at java.awt.Window.dispatchEventImpl(Unknown Source)
        at java.awt.Component.dispatchEvent(Unknown Source)
        at java.awt.EventQueue.dispatchEventImpl(Unknown Source)
        at java.awt.EventQueue.access$500(Unknown Source)
        at java.awt.EventQueue$3.run(Unknown Source)
        at java.awt.EventQueue$3.run(Unknown Source)
        at java.security.AccessController.doPrivileged(Native Method)
        at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
        at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
        at java.awt.EventQueue$4.run(Unknown Source)
        at java.awt.EventQueue$4.run(Unknown Source)
        at java.security.AccessController.doPrivileged(Native Method)
        at java.security.ProtectionDomain$JavaSecurityAccessImpl.doIntersectionPrivilege(Unknown Source)
        at java.awt.EventQueue.dispatchEvent(Unknown Source)
        at java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
        at java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
        at java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
        at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
        at java.awt.EventDispatchThread.pumpEvents(Unknown Source)
        at java.awt.EventDispatchThread.run(Unknown Source)

Here's my setup in xiSearch:

I have also uploaded my input files here: google drive

I am running the latest java version:

java version "1.8.0_471"
Java(TM) SE Runtime Environment (build 1.8.0_471-b09)
Java HotSpot(TM) 64-Bit Server VM (build 25.471-b09, mixed mode)

on a Windows 11 Pro 24H2 (x86, 64-bit)

Any help would be appreciated 🙏

0 replies

lutzfischer · 2026-01-25T21:31:27Z

lutzfischer
Jan 25, 2026
Maintainer

This should be solved in newer versions of xiSEARCH - sorry forgot to update

0 replies

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Jul 11, 2024
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